Long noncoding RNA expression profiles of hypoxic pulmonary hypertension rat model

Gene

Volumn 579, Issue 1, 2016, Pages 23-28

  Wang, Xiaohua ^a   Yan, Chao ^a   Xu, Xiaoling ^a   Dong, Liangliang ^a   Su, Hua ^a   Hu, Yanjie ^a   Zhang, Ruifeng ^a   Ying, Kejing ^a  

^a ZHEJIANG UNIVERSITY   (China)

Author keywords

Expression profile; HPH rat model; Hypoxia; Hypoxic pulmonary hypertension; Long noncoding RNAs

Indexed keywords

LONG UNTRANSLATED RNA; MESSENGER RNA;

ANIMAL EXPERIMENT; ANIMAL MODEL; ANIMAL TISSUE; ARTICLE; CONTROLLED STUDY; DOWN REGULATION; EXPERIMENTAL PULMONARY HYPERTENSION; GENE EXPRESSION; HYPOXIC PULMONARY HYPERTENSION; LUNG PARENCHYMA; MALE; NONHUMAN; PRIORITY JOURNAL; RAT; REAL TIME POLYMERASE CHAIN REACTION; SPRAGUE DAWLEY RAT; UPREGULATION; ANIMAL; CELL HYPOXIA; DNA MICROARRAY; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENE ONTOLOGY; GENETICS; HUMAN; LUNG; METABOLISM; PROCEDURES; PULMONARY HYPERTENSION;

ANIMALS; CELL HYPOXIA; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENE ONTOLOGY; HUMANS; HYPERTENSION, PULMONARY; LUNG; MALE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; RATS; RATS, SPRAGUE-DAWLEY; RNA, LONG NONCODING;

EID: 84958924161     PISSN: 03781119     EISSN: 18790038     Source Type: Journal    
DOI: 10.1016/j.gene.2015.12.044     Document Type: Article

References (39)

1. Alvarez-Dominguez J.R., Hu W., Yuan B., Shi J., Park S.S., Gromatzky A.A., et al. Global discovery of erythroid long noncoding RNAs reveals novel regulators of red cell maturation. Blood 2014, 123(4):570-581. (Jan 23).
2. Ashburner M., Ball C.A., Blake J.A., Botstein D., Butler H., Cherry J.M., et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 2000, 25(1):25-29. (May).
3. Cabianca D.S., Casa V., Bodega B., Xynos A., Ginelli E., Tanaka Y., et al. A long ncRNA links copy number variation to a polycomb/trithorax epigenetic switch in FSHD muscular dystrophy. Cell 2012, 149(4):819-831. (May 11).
4. Cesana M., Cacchiarelli D., Legnini I., Santini T., Sthandier O., Chinappi M., et al. A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. Cell 2011, 147(2):358-369. (Oct 14).
5. Chaumeil J., Le Baccon P., Wutz A., Heard E. A novel role for xist RNA in the formation of a repressive nuclear compartment into which genes are recruited when silenced. Genes Dev. 2006, 20(16):2223-2237. (Aug 15).
6. Chen D., Yang Y., Cheng X., Fang F., Xu G., Yuan Z., et al. Megakaryocytic leukemia 1 directs a histone H3 lysine 4 methyltransferase complex to regulate hypoxic pulmonary hypertension. Hypertension 2015, 65(4):821-833. (Apr).
7. Clark M.B., Johnston R.L., Inostroza-Ponta M., Fox A.H., Fortini E., Moscato P., et al. Genome-wide analysis of long noncoding RNA stability. Genome Res. 2012, 22(5):885-898. (May).
8. Derti A., Roth F.P., Church G.M., Wu C.T. Mammalian ultraconserved elements are strongly depleted among segmental duplications and copy number variants. Nat. Genet. 2006, 38(10):1216-1220. (Oct).
9. Draghici S., Khatri P., Tarca A.L., Amin K., Done A., Voichita C., et al. A systems biology approach for pathway level analysis. Genome Res. 2007, 17(10):1537-1545. (Oct).
10. Dupuy D., Bertin N., Hidalgo C.A., Venkatesan K., Tu D., Lee D., et al. Genome-scale analysis of in vivo spatiotemporal promoter activity in Caenorhabditis elegans. Nat. Biotechnol. 2007, 25(6):663-668. (Jun).
11. Ferdin J., Nishida N., Wu X., Nicoloso M.S., Shah M.Y., Devlin C., et al. HINCUTs in cancer: hypoxia-induced noncoding ultraconserved transcripts. Cell Death Differ. 2013, 20(12):1675-1687. (Dec).
12. Ghatnekar A., Chrobak I., Reese C., Stawski L., Seta F., Wirrig E., et al. Endothelial GATA-6 deficiency promotes pulmonary arterial hypertension. Am. J. Pathol. 2013, 182(6):2391-2406. (Jun).
13. Greco S., Gorospe M., Martelli F. Noncoding RNA in age-related cardiovascular diseases. J. Mol. Cell. Cardiol. 2015, 83:142-155. (Jun).
14. Gutschner T., Diederichs S. The hallmarks of cancer: a long non-coding RNA point of view. RNA Biol. 2012, 9(6):703-719. (Jun).
15. Guttman M., Donaghey J., Carey B.W., Garber M., Grenier J.K., Munson G., et al. LincRNAs act in the circuitry controlling pluripotency and differentiation. Nature 2011, 477(7364):295-300. (Sep 15).
16. Ha D., Mester J., Eng C., Farha S. Pulmonary arterial hypertension in a patient with cowden syndrome and the PTEN mutation. Pulm. Circ. 2014, 4(4):728-731. (Dec).
17. Huarte M., Guttman M., Feldser D., Garber M., Koziol M.J., Kenzelmann-Broz D., et al. A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response. Cell 2010, 142(3):409-419. (Aug 6).
18. Jernigan N.L. Smooth muscle acid-sensing ion channel 1: pathophysiological implication in hypoxic pulmonary hypertension. Exp. Physiol. 2015, 100(2):111-120. (Feb 1).
19. Kogo R., Shimamura T., Mimori K., Kawahara K., Imoto S., Sudo T., et al. Long noncoding RNA HOTAIR regulates polycomb-dependent chromatin modification and is associated with poor prognosis in colorectal cancers. Cancer Res. 2011, 71(20):6320-6326. (Oct 15).
20. Lagna G., Nguyen P.H., Ni W., Hata A. BMP-dependent activation of caspase-9 and caspase-8 mediates apoptosis in pulmonary artery smooth muscle cells. Am. J. Physiol. Lung Cell. Mol. Physiol. 2006 Nov, 291(5). (L1059-67).
21. Ling J.Q., Li T., Hu J.F., Vu T.H., Chen H.L., Qiu X.W., et al. CTCF mediates interchromosomal colocalization between Igf2/H19 and Wsb1/Nf1. Science 2006, 312(5771):269-272. (Apr 14).
22. Ling H., Vincent K., Pichler M., Fodde R., Berindan-Neagoe I., Slack F.J., et al. Junk DNA and the long non-coding RNA twist in cancer genetics. Oncogene 2015, (Jan 26).
23. Mathew R., Huang J., Shah M., Patel K., Gewitz M., Sehgal P.B. Disruption of endothelial-cell caveolin-1alpha/raft scaffolding during development of monocrotaline-induced pulmonary hypertension. Circulation 2004, 110(11):1499-1506. (Sep 14).
24. Matouk I.J., Mezan S., Mizrahi A., Ohana P., Abu-Lail R., Fellig Y., et al. The oncofetal H19 RNA connection: hypoxia, p53 and cancer. Biochim. Biophys. Acta 2010, 1803(4):443-451. (Apr).
25. Montani D., Perros F., Gambaryan N., Girerd B., Dorfmuller P., Price L.C., et al. C-kit-positive cells accumulate in remodeled vessels of idiopathic pulmonary arterial hypertension. Am. J. Respir. Crit. Care Med. 2011, 184(1):116-123. (Jul 1).
26. Nagano T., Fraser P. No-nonsense functions for long noncoding RNAs. Cell 2011, 145(2):178-181. (Apr 15).
27. Nave A.H., Mizikova I., Niess G., Steenbock H., Reichenberger F., Talavera M.L., et al. Lysyl oxidases play a causal role in vascular remodeling in clinical and experimental pulmonary arterial hypertension. Arterioscler. Thromb. Vasc. Biol. 2014, 34(7):1446-1458. (Jul).
28. Patel B.B., Feng Y., Cheng-Lai A. Pulmonary arterial hypertension: a review in pharmacotherapy. Cardiol. Rev. 2015, 23(1):33-51. (Jan-Feb).
29. Seeger W., Hartmann R., Neuhof H., Bhakdi S. In-situ complement activation, pulmonary hypertension and vascular leakage in rabbit lungs-the role of the terminal complement complex. Prog. Clin. Biol. Res. 1989, 308:283-289.
30. Semenza G.L. Hypoxia-inducible factors in physiology and medicine. Cell 2012, 148(3):399-408. (Feb 3).
31. Shimoda L.A., Laurie S.S. HIF and pulmonary vascular responses to hypoxia. J. Appl. Physiol. 1985, 116(7):867-874. (2014 Apr 1).
32. Shimoda L.A., Laurie S.S. Vascular remodeling in pulmonary hypertension. J. Mol. Med. (Berl) 2013, 91(3):297-309. (Mar).
33. Simonneau G., Robbins I.M., Beghetti M., Channick R.N., Delcroix M., Denton C.P., et al. Updated clinical classification of pulmonary hypertension. J. Am. Coll. Cardiol. 2009, 54(1 Suppl.):S43-S54. (Jun 30).
34. Smith K.A., Voiriot G., Tang H., Fraidenburg D.R., Song S., Yamamura H., et al. Notch Activation of Ca Signaling Mediates Hypoxic Pulmonary Vasoconstriction and Pulmonary Hypertension. Am. J. Respir. Cell Mol. Biol. 2015, (Jan 8).
35. Stenmark K.R., Meyrick B., Galie N., Mooi W.J., McMurtry I.F. Animal models of pulmonary arterial hypertension: the hope for etiological discovery and pharmacological cure. Am. J. Physiol. Lung Cell. Mol. Physiol. 2009, 297(6):L1013-L1032. (Dec).
36. The Gene Ontology (GO) project in 2006 Nucleic Acids Res. 2006, 34(Database issue). (Jan 1 D322-6).
37. Vencken S.F., Greene C.M., McKiernan P.J. Non-coding RNA as lung disease biomarkers. Thorax 2015, 70(5):501-503. (May).
38. Veneziano D., Nigita G., Ferro A. Computational approaches for the analysis of ncRNA through deep sequencing techniques. Front. Bioeng. Biotechnol. 2015, 3:77.
39. Yi M., Horton J.D., Cohen J.C., Hobbs H.H., Stephens R.M. WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data. BMC Bioinf. 2006, 7:30.